SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Membrane and cell surface proteins and peptides [ 56835] (58)
Fold:   14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [ 81525]
Superfamily:   14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [ 81524]
Families:   14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [ 81523]


Superfamily statistics
Genomes (469) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 619 671 7
Proteins 615 670 7


Functional annotation
General category Metabolism
Detailed category Energy

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)generation of precursor metabolites and energy0.000000065750.000000115Moderately InformativeDirect
Cellular Component (CC)membrane0.0000046260.0001896Least InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.00011740.0002349Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.00046970.00009985Least InformativeDirect
Cellular Component (CC)macromolecular complex0.00031390.005392Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.00032710.01616Least InformativeInherited
Cellular Component (CC)mitochondrial envelope0.000000000002980.0000000000008318Moderately InformativeDirect
Cellular Component (CC)organelle inner membrane0.0000000000034450.000000000001167Moderately InformativeDirect
Cellular Component (CC)membrane protein complex0.000045560.000003247Moderately InformativeDirect
Cellular Component (CC)mitochondrial protein complex0.00000076590.000000195Moderately InformativeDirect
Cellular Component (CC)intrinsic component of membrane0.0049520.02298Moderately InformativeInherited
Cellular Component (CC)mitochondrial respiratory chain0.0000030070.000002035InformativeDirect
Cellular Component (CC)cytochrome complex0.000000000016380.0000000000006318InformativeDirect
Cellular Component (CC)inner mitochondrial membrane protein complex0.00032370.00003703InformativeDirect
Cellular Component (CC)oxidoreductase complex0.000000000012480.00000000001497InformativeDirect
Cellular Component (CC)transporter complex0.000000000000057550.00000000004059InformativeDirect
Cellular Component (CC)respiratory chain complex0.0062760.0004665InformativeInherited
Cellular Component (CC)mitochondrial respiratory chain complex III0.0000000000021140.000000000005477Highly InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) generation of precursor metabolites and energy 0.000000115 Moderately Informative Direct
Cellular Component (CC) membrane 0.0001896 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.0002349 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.00009985 Least Informative Direct
Cellular Component (CC) macromolecular complex 0.005392 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.01616 Least Informative Inherited
Cellular Component (CC) mitochondrial envelope 0.0000000000008318 Moderately Informative Direct
Cellular Component (CC) organelle inner membrane 0.000000000001167 Moderately Informative Direct
Cellular Component (CC) membrane protein complex 0.000003247 Moderately Informative Direct
Cellular Component (CC) mitochondrial protein complex 0.000000195 Moderately Informative Direct
Cellular Component (CC) intrinsic component of membrane 0.02298 Moderately Informative Inherited
Cellular Component (CC) mitochondrial respiratory chain 0.000002035 Informative Direct
Cellular Component (CC) cytochrome complex 0.0000000000006318 Informative Direct
Cellular Component (CC) inner mitochondrial membrane protein complex 0.00003703 Informative Direct
Cellular Component (CC) respiratory chain complex 0.0004665 Informative Direct
Cellular Component (CC) oxidoreductase complex 0.00000000001497 Informative Direct
Cellular Component (CC) transporter complex 0.00000000004059 Informative Direct
Cellular Component (CC) mitochondrial respiratory chain complex III 0.000000000005477 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processElectron transport0InformativeDirect
Biological processRespiratory chain0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
Cellular componentMitochondrion inner membrane0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR003197 SSF81524 Protein matches
Abstract

The cytochrome bd type terminal oxidases catalyse quinol dependent, Na+ independent oxygen uptake [PubMed8626304]. Members of this family are integral membrane proteins and contain a protoheame IX centre B558.

Cytochrome bd may play an important role in microaerobic nitrogen fixation in the enteric bacterium Klebsiella pneumoniae, where it is expressed under all conditions that permit diazotrophy [PubMed9274021].

The 14 kDa (or VI) subunit of the complex is not directly involved in electron transfer, but has a role in assembly of the complex [PubMed7770525].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 3 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a 14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 3 hidden Markov models representing the 14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]